Granulicella paludicola (DSM 22464, LMG 25275, OB1010)

Name: Granulicella paludicola (DSM 22464, LMG 25275, OB1010)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 139

Type strain

Strain Designation OB1010

Culture col. no. DSM 22464 LMG 25275 OB1010

NCBI tax ID(s) 474951

Special Collections DSMZ Literature strains

History DSMZ <- S. N. Dedysh, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; OB1010 <- T. A. Pankratov

Links

Granulicella paludicola OB1010 is an obligate aerobe, chemoorganotroph, Gram-negative bacterium that was isolated from Sphagnum peat bog.

Gram-negative rod-shaped obligate aerobe chemoorganotroph genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 398202

LMG 25275,DSM 22464

@ref 20215

Last LPSN update 2026-05-29 08:24:57

Domain Bacteria

Phylum Acidobacteriota

Class Terriglobia

Order Terriglobales

Family Acidobacteriaceae

Genus Granulicella

Species Granulicella paludicola

Full scientific name Granulicella paludicola Pankratov and Dedysh 2010

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
22971	negative	1.5-3.5 µm	0.4-0.6 µm	rod-shaped
125439	negative				97.217
125438	negative				90.136

Colony morphology

@ref	Colony size	Colony color	Colony shape	Medium used	Incubation period
16353					3-7 days
22971	<4.0 mm	pink to red	circular	solid media made with Gel-Gro

Pigmentation

@ref	Production	Name
22971		carotenoid pigment

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
16353	GRANULICELLA PALUDICOLA MEDIUM (DSMZ Medium 1285)	Medium recipe at MediaDive	Name: GRANULICELLA PALUDICOLA MEDIUM (DSMZ Medium 1285) Composition: Agar 15.0 g/l Fructose 0.5 g/l KH2PO4 0.1 g/l (NH4)2SO4 0.1 g/l Casamino acids 0.05 g/l Yeast extract 0.05 g/l MgSO4 x 7 H2O 0.04 g/l CaCl2 x 2 H2O 0.02 g/l Distilled water
16353	R2A MEDIUM (DSMZ Medium 830)	Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830; with strain-specific modifications) Composition: Agar 15.0 g/l Fructose 0.5 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 0.5 g/l Na-pyruvate 0.3 g/l K2HPO4 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
22971	solid media made with Gel-Gro

Culture temp

@ref	Growth	Type	Temperature (°C)
16353	positive	growth	20
22971	positive	growth	2.0-33.0
22971	positive	optimum	18.0-22.0

Culture pH

@ref	Ability	Type	PH	PH range
22971	positive	optimum	4.2
22971	positive	growth	3.0-7.5	acidophile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
22971	obligate aerobe
125439	obligate aerobe	99.919

Nutrition type

22971

Typechemoorganotroph

Spore formation

22971

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
22971	NaCl		growth	5.0 %(w/v)
22971	NaCl	positive	growth	<3.5 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
22971	30089 ChEBI	acetate	-	growth
22971	58187 ChEBI	alginate	-	hydrolysis
22971	18305 ChEBI	arbutin	+/-	growth
22971	17968 ChEBI	butyrate	-	growth
22971	85146 ChEBI	carboxymethylcellulose	-	hydrolysis
22971	57704 ChEBI	cationic chitosan	-	hydrolysis
22971	17057 ChEBI	cellobiose	+	carbon source
22971	17057 ChEBI	cellobiose	+	growth
22971	62968 ChEBI	cellulose	-	hydrolysis
22971	17029 ChEBI	chitin	-	hydrolysis
22971	16947 ChEBI	citrate	-	growth
22971	17108 ChEBI	D-arabinose	-	growth
22971	15824 ChEBI	D-fructose	+	carbon source
22971	28847 ChEBI	D-fucose	-	growth
22971	12936 ChEBI	D-galactose	+	carbon source
22971	12936 ChEBI	D-galactose	+	growth
22971	8391 ChEBI	D-gluconate	+	carbon source
22971	17634 ChEBI	D-glucose	+	carbon source
22971	16024 ChEBI	D-mannose	+	carbon source
22971	16024 ChEBI	D-mannose	+	growth
22971	63150 ChEBI	D-rhamnose	+	carbon source
22971	63150 ChEBI	D-rhamnose	+	growth
22971	16988 ChEBI	D-ribose	-	growth
22971	17317 ChEBI	D-sorbose	-	growth
22971	65327 ChEBI	D-xylose	+/-	growth
22971	4853 ChEBI	esculin	+	hydrolysis
22971	16236 ChEBI	ethanol	-	growth
22971	15740 ChEBI	formate	-	growth
22971	5181 ChEBI	fucoidan	-	hydrolysis
22971	29806 ChEBI	fumarate	-	growth
22971	16813 ChEBI	galactitol	-	growth
22971	24175 ChEBI	galacturonate	+	carbon source
22971	24297 ChEBI	glucuronate	+/-	growth
22971	17120 ChEBI	hexanoate	-	growth
22971	15443 ChEBI	inulin	+/-	growth
22971	24996 ChEBI	lactate	-	growth
22971	17716 ChEBI	lactose	+	carbon source
22971	17716 ChEBI	lactose	+	growth
22971	6359 ChEBI	lactulose	+	carbon source
22971	6359 ChEBI	lactulose	+	growth
22971	6364 ChEBI	laminarin	+	hydrolysis
22971	79285 ChEBI	leucrose	+	carbon source
22971	79285 ChEBI	leucrose	+	growth
22971	6452 ChEBI	lichenin	+	hydrolysis
22971	25115 ChEBI	malate	-	growth
22971	17306 ChEBI	maltose	+	carbon source
22971	17306 ChEBI	maltose	+	growth
22971	29864 ChEBI	mannitol	-	growth
22971	6731 ChEBI	melezitose	+	carbon source
22971	6731 ChEBI	melezitose	+	growth
22971	28053 ChEBI	melibiose	+	carbon source
22971	28053 ChEBI	melibiose	+	growth
22971	17790 ChEBI	methanol	-	growth
22971	17268 ChEBI	myo-inositol	+/-	growth
22971	506227 ChEBI	N-acetylglucosamine	+	carbon source
22971	506227 ChEBI	N-acetylglucosamine	+	growth
22971	30623 ChEBI	oxalate	-	growth
22971	17309 ChEBI	pectin	+	hydrolysis
22971	17272 ChEBI	propionate	-	growth
22971	27941 ChEBI	pullulan	-	hydrolysis
22971	15361 ChEBI	pyruvate	-	growth
22971	16634 ChEBI	raffinose	+	carbon source
22971	16634 ChEBI	raffinose	+	growth
22971	15963 ChEBI	ribitol	-	growth
22971	17814 ChEBI	salicin	+	carbon source
22971	17814 ChEBI	salicin	+	growth
22971	30911 ChEBI	sorbitol	-	growth
22971	28017 ChEBI	starch	+	hydrolysis
22971	30031 ChEBI	succinate	-	growth
22971	17992 ChEBI	sucrose	+	carbon source
22971	17992 ChEBI	sucrose	+	growth
22971	27082 ChEBI	trehalose	-	growth
22971	31011 ChEBI	valerate	-	growth
22971	37166 ChEBI	xylan	+	hydrolysis

Antibiotic resistance

@ref	ChEBI	Metabolite
22971	28971	ampicillin
22971	17698	chloramphenicol
22971	17833	gentamicin
22971	6104	kanamycin
22971	6472	lincomycin
22971	7507	neomycin
22971	28368	novobiocin
22971	17076	streptomycin

Enzymes

@ref	Value	Activity	Ec
22971	acid phosphatase	-	3.1.3.2
22971	alkaline phosphatase	-	3.1.3.1
22971	alpha-chymotrypsin	+/-	3.4.21.1
22971	alpha-fucosidase	-	3.2.1.51
22971	alpha-galactosidase	-	3.2.1.22
22971	alpha-glucosidase	+	3.2.1.20
22971	alpha-mannosidase	-	3.2.1.24
22971	beta-galactosidase	-	3.2.1.23
22971	beta-glucosidase	-	3.2.1.21
22971	beta-glucuronidase	-	3.2.1.31
22971	catalase	+	1.11.1.6
22971	cystine arylamidase	-	3.4.11.3
22971	cytochrome oxidase	+	1.9.3.1
22971	esterase (C 4)	+/-
22971	esterase lipase (C 8)	-
22971	leucine arylamidase	-	3.4.11.1
22971	lipase (C 14)	-
22971	N-acetyl-beta-glucosaminidase	+	3.2.1.52
22971	naphthol-AS-BI-phosphohydrolase	-
22971	trypsin	-	3.4.21.4
22971	urease	-	3.5.1.5
22971	valine arylamidase	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Peat moss
#Environmental	#Terrestrial	#Wetland (Swamp)

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
16353	Sphagnum peat bog	Sphagnum	European North Russia, Yaroslavl region, Obukhovskoe (58°14'N 38°12'E)	Russia	RUS	Europe	58.2333	38.2 58.2333/38.2
22971	sphagnum peat bog Obukhovskoe		Yaroslavl region	Russia	RUS	Europe	58.2333	38.2 58.2333/38.2

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16353	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM2568554v1 assembly for Granulicella paludicola DSM 22464	contig	GCA_025685545	474951.3	8047863164	474951	67.75

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16353	Granulicella paludicola partial 16S rRNA gene, type strain OB1010T	AM887758	1419		474951

GC content

@ref	GC-content (mol%)	Method
16353	57.4	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM2568554v1 assembly for Granulicella paludicola DSM 22464
NCBI: GCA_025685545

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.92	no
125439	gram_stain	BacteriaNetⓘ	negative	97.22	no
125439	motility	BacteriaNetⓘ	no	87.07	no
125439	spore_formation	BacteriaNetⓘ	no	82.44	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Granulicella paludicola DSM 22464
NCBI: GCA_025685545.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	90.14	yes
125438	anaerobic	anaerobicⓘ	no	91.13	no
125438	aerobic	aerobicⓘ	yes	77.50	no
125438	spore-forming	spore-formingⓘ	no	81.79	yes
125438	thermophilic	thermophileⓘ	no	93.85	yes
125438	flagellated	motile2+ⓘ	no	75.39	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Granulicella cerasi sp. nov., an acidophilic bacterium isolated from cherry bark.	Yamada K, Okuno Y, Meng XY, Tamaki H, Kamagata Y, Hanada S	Int J Syst Evol Microbiol	10.1099/ijs.0.058636-0	2014
Phylogeny	Granulicella paludicola gen. nov., sp. nov., Granulicella pectinivorans sp. nov., Granulicella aggregans sp. nov. and Granulicella rosea sp. nov., acidophilic, polymer-degrading acidobacteria from Sphagnum peat bogs.	Pankratov TA, Dedysh SN	Int J Syst Evol Microbiol	10.1099/ijs.0.021824-0	2010

References

#16353	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22464
#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#22971	Timofey A. Pankratov,Svetlana N. Dedysh: Granulicella paludicola gen. nov., sp. nov., Granulicella pectinivorans sp. nov., Granulicella aggregans sp. nov. and Granulicella rosea sp. nov., acidophilic, polymer-degrading acidobacteria from Sphagnum peat bogs. IJSEM 60: 2951 - 2959 2010 ( DOI 10.1099/ijs.0.021824-0 , PubMed 20118293 )
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Granulicella paludicola (DSM 22464, LMG 25275, OB1010)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Nutrition type

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_025685545

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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